Selection of age classes of<Emphasis Type="Italic"> Sasa</Emphasis> leaves by caterpillars of the skipper butterfly<Emphasis Type="Italic"> Thoressa varia</Emphasis> using albo-margination of overwintered leaves

A blade of the bamboo grass Sasa veitchii var. hirsuta (Koidzumi) typically has a lifespan of 2–4 years. After winter, the edge of the blade dies and a white margin is drawn on the blade. Such an albo-marginated blade is thought to be of relatively low quality as food for insects. Caterpillars of the skipper butterfly Thoressa varia (Murray) (Lepidoptera: Hesperiidae) that fed on blades of S. veitchii almost always utilized current-year blades. The mechanism by which they discriminate between age classes of blades was studied. The caterpillars did not choose albo-marginated blades, but they chose overwintered blades whose margins had been removed. This indicates that they use albo-margination as evidence of the age of a blade.     

Does carbon enrichment affect hyporheic invertebrates in a gravel stream?

For a period of one year we injected a solution of stream water enriched with glucose and inorganic nitrogen and phosphorus at two experimental sites into the hyporheic sediments of the Oberer Seebach, Austria. The biofilm reacted with a quantitative increase after two weeks. The hyporheic invertebrates were sampled with the Cage Pipe Trap method, where the number of trapped animals is determined by the spatial density and the activity of the invertebrates. Within two and six weeks, the hyporheic invertebrates exhibited a reaction indicating an utilization of the new food resources. Over a longer period of one year, three different reaction patterns appeared. The number of nematods and ostracods increased extensively, presumably caused by the modification of the spatial structure of the environment due to biofilm growth. The number of the small sized invertebrates decreased, reflecting the reduced feeding effort. And the number of the large insect larvae increased indicating that these group is mainly limited by space. The hyporheic zone is described as a ‘self-cleaning DOC filter’, an attribute that is particularly assigned to the ecotone between the riparian soil zone and the stream hyporheic zone.     

Good–Turing frequency estimation in a finite population

Good–Turing frequency estimation (Good, 1953 ) is a simple, effective method for predicting detection probabilities of objects of both observed and unobserved classes based on observed frequencies of classes in a sample. The method has been used widely in several disciplines, such as information retrieval, computational linguistics, text recognition, and ecological diversity estimation. Nevertheless, existing studies assume sampling with replacement or sampling from an infinite population, which might be inappropriate for many practical applications. In light of this limitation, this article presents a modification of the Good–Turing estimation method to account for finite population sampling. We provide three practical extensions of the modified method, and we examine performance of the modified method and its extensions in simulation experiments.     

Unstable, non-mutational expression of resistance to the thymidine analogue, trifluorothymidine in CHO cells.

In Saccharomyces cerevisiae, methyl methanesulphonate and diepoxybutane produced efficiently lethal, as well as mutagenic, damage in nuclear DNA. However, in the same conditions, these agents did not induce cytoplasmic petite mutations and poorly induced point mutations (resistance to erythromycin and chloramphenicol) in mitochondrial DNA. Possible reasons for these differences are discussed.     

Hepatocyte classes during liver atrophy due to starvation in the golden hamster

Summary The total dry masses of normal hepatocytes isolated from adult golden hamsters form a multimodal frequency distribution curve (10–11 cell classes with a period of 132 pg). During starvation the hepatocytes maintain the arrangement in classes, the number of which, however, decreases. The cell percentage of the lightest classes progressively increases, but no change occurs in the class period. A similar behaviour is shown by the aqueo-insoluble dry masses of the hepatocytes. The nuclear dry masses increase until the 4th day of starvation. Later on, they decrease. The nucleo-cytoplasmic ratio progressively increases. The total number of hepatocytes per liver and the binuclear cell percentage do not show any significant changes during starvation. The mitotic index is lower in starved animals. The kinetics of decrement in dry mass of the hepatocytes during starvation and the possibility that the hepatocyte class series are the resultant of a dynamic balance of single hepatocyte mass are discussed.This work was supported by Consiglio Nazionale delle Ricerche, Roma, Italia (Grant No. 70/01811/04).The author is deeply grateful to Prof. Enrico Puccinelli for his encouragement and advice during this work. The skilful technical assistance of Mrs. Lucia Giaccardo and Mr. Emilio Madrigali is gratefully acknowledged.     

Lichens and bryophytes as indicators of old‐growth features in Mediterranean forests

Abstract

This study is focused on the selection of variables affecting lichen and bryophyte diversity in Mediterranean deciduous forests. Plots representing two forest types (Fagus sylvatica and Quercus cerris forests) and two forest continuity categories (old‐growth (OG) and non‐OG forests) were selected in the Cilento and Vallo di Diano National Park (Italy). The presence and the abundance of bryophytes and epiphytic lichens were recorded. Structural variables of the forests and vascular plant species richness have been used as predictors. A strong positive correspondence between the two groups of organisms was found. Higher species richness and the distribution of rare species are related to OG stands, while a qualitative (species composition) rather than a quantitative (species richness) difference between the two forest types was observed. Some species elsewhere considered as indicators of forest continuity, such as Lobaria pulmonaria, Antitrichia curtipendula, and Homalothecium sericeum, are associated with OG forests, independently from forest type, suggesting that they can be regarded as suitable indicators also in Mediterranean forests. Finally, our results suggest that old trees, high levels of basal area, a broad range of diameter classes, and high understory diversity are the main structural features affecting cryptogamic communities, while no correlation was found with the occurrence of deadwood.     

Ab initio structure prediction of the antibody hypervariable H3 loop

Antibodies have the capability of binding a wide range of antigens due to the diversity of the six loops constituting the complementarity determining region (CDR). Among the six loops, the H3 loop is the most diverse in structure, length, and sequence identity. Prediction of the three‐dimensional structures of antibodies, especially the CDR loops, is an important step in the computational design and engineering of novel antibodies for improved affinity and specificity. Although it has been demonstrated that the conformation of the five non‐H3 loops can be accurately predicted by comparing their sequences against databases of canonical loop conformations, no such connection has been established for H3 loops. In this work, we present the results for ab initio structure prediction of the H3 loop using conformational sampling and energy calculations with the program Prime on a dataset of 53 loops ranging in length from 4 to 22 residues. When the prediction is performed in the crystal environment and including symmetry mates, the median backbone root mean square deviation (RMSD) is 0.5 Å to the crystal structure, with 91% of cases having an RMSD of less than 2.0 Å. When the prediction is performed in a noncrystallographic environment, where the scaffold is constructed by swapping the H3 loops between homologous antibodies, 70% of cases have an RMSD below 2.0 Å. These results show promise for ab initio loop predictions applied to modeling of antibodies. © 2012 Wiley Periodicals, Inc.     

Dynamics of biochemical components, lipid classes and energy values on gonadal development of R. philippinarum associated with the temperature and ingestion rate

This study evaluates the effect of temperature, coupled with ingestion rate, on the dynamics of biochemical components and lipid classes in R. philippinarum. The data are discussed with regard to sexual development and energy balance. Experimental protocol developed in the present study used two groups of the clam R. philippinarum: L (temperatures of 14 degrees C and 18 degrees C) and H (temperatures of 18 degrees C and 22 degrees C). The intra-group ingestion level was similar, although the ingestion level of the clams in the group H was 2.4 times higher than group L. We observed that R. philippinarum conditioned at 18 degrees C (18L) shows higher protein content, furthermore an important loss of organic weight was observed after 48 days. In such a situation, the clams use their own reserves (carbohydrates and glycogen) for sexual development while in situations without food stress (positive energy balance) and low temperature (14 degrees C) an accumulation of reserves is produced. Strikingly dissimilar behaviour in biochemical composition was observed for the 18H and 22H treatments, both with a positive energy balance. Despite similar protein content, the highest levels of carbohydrates were observed at the lower temperature (18 degrees C). Glycogen was also higher for the 18 degrees C treatment, although the differences were significant only in the males. Although the total lipids in R. philippinarum showed no significant differences in any treatment, they became apparent and related to sex when considering the individual lipid classes. There was no variation in lipid classes in the males between the 14L and 22H treatments despite the large disparity in the degree of sexual development. However, in the females significant differences in lipid classes (phospholipids, triglycerides) were observed. The results of this study show that a positive energy balance permits R. philippinarum gonadal development and accumulation of reserves both in low and high temperature conditions. In low temperature situations, gonadal development is slower and the energy reserves are accumulated in the form of carbohydrates. When the clams are conditioned at high temperatures, gonadal development is fast and complete, carbohydrates are consumed and lipids are accumulated.     

Lipid class composition of bleached and recovering Porites compressa Dana, 1846 and Montipora capitata Dana, 1846 corals from Hawaii

Corals rely on stored reserves, especially lipids, to survive bleaching events. Lipid class composition reveals the lipid source, and provides evidence of metabolic changes (i.e., photoautotrophic or heterotrophic) during bleaching and recovery. Porites compressa Dana, 1846 and Montipora capitata Dana, 1846 corals were experimentally bleached in outdoor tanks with seawater temperature elevated to 30 °C (treatment corals). Additional control fragments were maintained in separate tanks at ambient temperatures (27 °C). After one month, all fragments were returned to the reef for 0, 1.5, 4, or 8 months. Lipid class composition was analyzed by Iatroscan (thin layer chromatography-flame ionization detection). In treatment P. compressa, triacylglycerol (TG) decreased at 0 and 1.5 months, phospholipid (PL) also decreased at 1.5 months, and both remained lower relative to controls along with wax esters (WE) after 8 months. Neither treatment nor control P. compressa had any detectable monoacylglycerol (MG) or diacylglycerol (DG). Overall, P. compressa first consumed available storage, then structural lipids, and all lipid classes remained low at the end of the study. In treatment M. capitata, TG and PL decreased, while MG increased relative to controls at 0 months. At 4 months, free fatty acid (FFA), sterol (ST), and PL in treatment M. capitata were two to ten times higher than controls. Treatment and control lipid class composition were not different from each other at 8 months. In contrast to P. compressa, M. capitata consumed some lipid classes and augmented others, probably due to sequential metabolism of storage lipids and increased heterotrophy. Overall, lipid class assimilation was more rapid in treatment M. capitata corals that switch between heterotrophy and photoautotrophy, than in treatment P. compressa corals that rely mostly on photoautotrophy.